The Functional RNA Database 3.0: databases to support mining and annotation of functional RNAs.
We developed a pair of databases that support two important tasks: annotation of anonymous RNA transcripts and discovery of novel non-coding RNAs. The database combo is called the Functional RNA Database and consists of two databases: a rewrite of the original version of the Functional RNA Database (fRNAdb) and the latest version of the UCSC GenomeBrowser for Functional RNA. The former is a sequence database equipped with a powerful search function and hosts a large collection of known/predicted non-coding RNA sequences acquired from existing databases as well as novel/predicted sequences reported by researchers of the Functional RNA Project. The latter is a UCSC Genome Browser mirror with large additional custom tracks specifically associated with non-coding elements. It also includes several functional enhancements such as a presentation of a common secondary structure prediction at any given genomic window < or =500 bp. Our GenomeBrowser supports user authentication and user-specific tracks. The current version of the fRNAdb is a complete rewrite of the former version, hosting a larger number of sequences and with a much friendlier interface. The current version of UCSC GenomeBrowser for Functional RNA features a larger number of tracks and richer features than the former version. The databases are available at http://www.ncrna.org/.
Mituyama
Toutai
T
National Institute of Advanced Industrial Science and Technology, Computational Biology Research Center, Tokyo 135-0064, Japan. mituyama-toutai@aist.go.jp
Yamada
Kouichirou
K
Hattori
Emi
E
Okida
Hiroaki
H
Ono
Yukiteru
Y
Terai
Goro
G
Yoshizawa
Aya
A
Komori
Takashi
T
Asai
Kiyoshi
K
D000818:Animals; D030561:Databases, Nucleic Acid; D023281:Genomics; D006801:Humans; D051379:Mice; D022661:RNA, Untranslated / Q000737:chemistry* / Q000502:physiology; D051381:Rats; D017423:Sequence Analysis, RNA
D022661:RNA, Untranslated